Variant report

Variant	rs11038742
Chromosome Location	chr11:46028281-46028282
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:45986022..45987159-chr11:46027654..46029158,13	K562	blood:
2	chr11:46021583..46025208-chr11:46025456..46028440,3	K562	blood:
3	chr11:46024538..46028805-chr11:46032055..46036011,4	K562	blood:
4	chr11:46028036..46029889-chr11:46143429..46146254,2	K562	blood:
5	chr11:45864388..45864916-chr11:46027549..46028549,2	K562	blood:
6	chr11:45986178..45987053-chr11:46027578..46028603,4	MCF-7	breast:
7	chr11:45894042..45894935-chr11:46027854..46028664,3	MCF-7	breast:
8	chr11:45893895..45894589-chr11:46027736..46028724,3	MCF-7	breast:
9	chr11:46027780..46028615-chr11:46097223..46097734,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000135365	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10501316	0.82[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap];0.81[MKK][hapmap]
rs10742774	0.95[CEU][hapmap]
rs10769176	0.95[CEU][hapmap];0.88[TSI][hapmap]
rs10769179	0.81[EUR][1000 genomes]
rs10838532	0.81[CHD][hapmap];0.83[MKK][hapmap]
rs10838533	0.81[CEU][hapmap]
rs10838535	0.81[CEU][hapmap]
rs10838541	0.81[EUR][1000 genomes]
rs11038716	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11038739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11038743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038752	0.82[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap]
rs11038754	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs11553094	1.00[LWK][hapmap]
rs12277800	0.80[EUR][1000 genomes]
rs12364441	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs12365345	0.82[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap]
rs12800259	0.86[JPT][hapmap]
rs12801848	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs1542724	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs17725532	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs1996573	0.95[CEU][hapmap];0.85[TSI][hapmap]
rs4237659	0.82[EUR][1000 genomes]
rs4756044	0.95[CEU][hapmap]
rs56852527	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6485654	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs7110825	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs7128184	0.95[CEU][hapmap];0.85[TSI][hapmap]
rs72904370	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7926314	0.95[CEU][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs7948502	0.95[CEU][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes]
rs7950391	0.90[CEU][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes]
rs884668	0.85[CEU][hapmap]
rs939107	0.95[CEU][hapmap];0.85[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523952	chr11:45983385-46028281	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
2	nsv522527	chr11:46024183-46033104	Enhancers Weak transcription Strong transcription Flanking Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv972948	chr11:46025325-46031491	Weak transcription Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46001400-46070400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr11:46002000-46042400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr11:46002000-46056200	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr11:46012800-46031000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:46012800-46062800	Weak transcription	GM12878-XiMat	blood
6	chr11:46016200-46048200	Weak transcription	Esophagus	oesophagus
7	chr11:46016800-46044000	Weak transcription	Primary T cells from cord blood	blood
8	chr11:46017000-46032000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr11:46022000-46033600	Weak transcription	Primary B cells from cord blood	blood
10	chr11:46022000-46074600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr11:46023000-46029000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr11:46023400-46038200	Weak transcription	A549	lung
13	chr11:46023400-46041800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr11:46023400-46047800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr11:46023400-46048200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr11:46023600-46041600	Weak transcription	Ovary	ovary
17	chr11:46023600-46046400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr11:46024800-46042600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr11:46025400-46028400	Weak transcription	Right Atrium	heart
20	chr11:46025600-46029200	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr11:46025600-46031000	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr11:46025600-46033600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr11:46025600-46033600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr11:46025600-46041800	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr11:46025600-46047400	Weak transcription	HSMMtube	muscle
26	chr11:46025600-46056200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr11:46025800-46031000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr11:46026000-46030800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr11:46026000-46031200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr11:46026000-46032000	Weak transcription	Colon Smooth Muscle	Colon
31	chr11:46026200-46033400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr11:46026200-46055600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr11:46026400-46032400	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr11:46026400-46033800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr11:46026400-46034000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr11:46026400-46047800	Weak transcription	HSMM	muscle
37	chr11:46026600-46031200	Weak transcription	K562	blood
38	chr11:46026600-46031400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr11:46026800-46033600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr11:46027800-46028600	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr11:46027800-46031200	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr11:46027800-46031400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr11:46028000-46033400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr11:46028200-46028400	Enhancers	Fetal Heart	heart
45	chr11:46028200-46031000	Weak transcription	Fetal Lung	lung
46	chr11:46028200-46033000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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